RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy17743
(618 letters)
>d1k4ta3 e.15.1.1 (A:201-430) Eukaryotic DNA topoisomerase I,
N-terminal DNA-binding fragment {Human (Homo sapiens)
[TaxId: 9606]}
Length = 230
Score = 314 bits (807), Expect = e-105
Identities = 134/187 (71%), Positives = 156/187 (83%)
Query: 5 GKEMKLSQDAEEIATFYARMIEHEYTTKEAFNTNFMKDWRKSMTEKERAVITDLSKCDFR 64
GK MKLS AEE+ATF+A+M++HEYTTKE F NF KDWRK MT +E+ +IT+LSKCDF
Sbjct: 44 GKVMKLSPKAEEVATFFAKMLDHEYTTKEIFRKNFFKDWRKEMTNEEKNIITNLSKCDFT 103
Query: 65 KMHAYFVQKSEERKAMSKEEKKKIKDENEAITKEYGVCTIDGHKEKIGNFRIEPPGLFRG 124
+M YF ++E RK MSKEEK KIK+ENE + KEYG C +D HKE+I NF+IEPPGLFRG
Sbjct: 104 QMSQYFKAQTEARKQMSKEEKLKIKEENEKLLKEYGFCIMDNHKERIANFKIEPPGLFRG 163
Query: 125 RGEHPKMGKLKRRVQAEDIIINCSKDSKVPPPPPGHKWKEVRHDNQVTWLASWTENVQGQ 184
RG HPKMG LKRR+ EDIIINCSKD+KVP PPPGHKWKEVRHDN+VTWL SWTEN+QG
Sbjct: 164 RGNHPKMGMLKRRIMPEDIIINCSKDAKVPSPPPGHKWKEVRHDNKVTWLVSWTENIQGS 223
Query: 185 VKYIMLN 191
+KYIMLN
Sbjct: 224 IKYIMLN 230
Score = 45.5 bits (108), Expect = 5e-06
Identities = 17/22 (77%), Positives = 19/22 (86%)
Query: 483 SVTWLASWTENVQGQVKYIMLN 504
VTWL SWTEN+QG +KYIMLN
Sbjct: 209 KVTWLVSWTENIQGSIKYIMLN 230
>d1oisa_ e.15.1.1 (A:) Eukaryotic DNA topoisomerase I, N-terminal
DNA-binding fragment {Baker's yeast (Saccharomyces
cerevisiae) [TaxId: 4932]}
Length = 223
Score = 312 bits (802), Expect = e-104
Identities = 89/191 (46%), Positives = 123/191 (64%), Gaps = 4/191 (2%)
Query: 5 GKEMKLSQDAEEIATFYARMIEHEYTTKEAFNTNFMKDWRKSMTEKERA----VITDLSK 60
GK + L AEE+A F+A ++E ++ F NF D+ + + E I + S+
Sbjct: 32 GKPVDLPPQAEEVAGFFAALLESDHAKNPVFQKNFFNDFLQVLKESGGPLNGIEIKEFSR 91
Query: 61 CDFRKMHAYFVQKSEERKAMSKEEKKKIKDENEAITKEYGVCTIDGHKEKIGNFRIEPPG 120
CDF KM YF + E++K ++ +EKK+I+ E E ++Y C +DG +E++GNF++EPP
Sbjct: 92 CDFTKMFDYFQLQKEQKKQLTSQEKKQIRLEREKFEEDYKFCELDGRREQVGNFKVEPPD 151
Query: 121 LFRGRGEHPKMGKLKRRVQAEDIIINCSKDSKVPPPPPGHKWKEVRHDNQVTWLASWTEN 180
LFRGRG HPK GKLKRRV EDI++N SKD+ VPP P GHKW E+RHDN V WLA W EN
Sbjct: 152 LFRGRGAHPKTGKLKRRVNPEDIVLNLSKDAPVPPAPEGHKWGEIRHDNTVQWLAMWREN 211
Query: 181 VQGQVKYIMLN 191
+ KY+ L
Sbjct: 212 IFNSFKYVRLA 222
Score = 45.1 bits (107), Expect = 8e-06
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 483 SVTWLASWTENVQGQVKYIMLN 504
+V WLA W EN+ KY+ L
Sbjct: 201 TVQWLAMWRENIFNSFKYVRLA 222
>d1k4ta2 d.163.1.2 (A:431-640,A:713-765) Eukaryotic DNA
topoisomerase I, catalytic core {Human (Homo sapiens)
[TaxId: 9606]}
Length = 263
Score = 274 bits (701), Expect = 1e-88
Identities = 171/250 (68%), Positives = 200/250 (80%), Gaps = 2/250 (0%)
Query: 192 PSSKLKGEKDWQKYETARKLAKSINKIRENYQADWKSKEMRIRQRAVALYFIDKLALRAG 251
PSS++KGEKDWQKYETAR+L K ++KIR Y+ DWKSKEM++RQRAVALYFIDKLALRAG
Sbjct: 1 PSSRIKGEKDWQKYETARRLKKCVDKIRNQYREDWKSKEMKVRQRAVALYFIDKLALRAG 60
Query: 252 NEKDEDQ-ADTVGCCSLRVEHIQLHEEKDGKPYVVCFDFLGKDSIRYYNEVPVEKRVFKN 310
NEK+E + ADTVGCCSLRVEHI LH E DG+ YVV FDFLGKDSIRYYN+VPVEKRVFKN
Sbjct: 61 NEKEEGETADTVGCCSLRVEHINLHPELDGQEYVVEFDFLGKDSIRYYNKVPVEKRVFKN 120
Query: 311 LQLFVENKKGSDDLFDRLNTSVLNKHLSELMEGLTAKVFRTYNASITLQQQLNELMDPDF 370
LQLF+ENK+ DDLFDRLNT +LNKHL +LMEGLTAKVFRTYNASITLQQQL EL PD
Sbjct: 121 LQLFMENKQPEDDLFDRLNTGILNKHLQDLMEGLTAKVFRTYNASITLQQQLKELTAPDE 180
Query: 371 SEAEKILAYNRANRAVAVLCNHQRSVPKSHDKSMGNLKEKISNKRKQVKDAERALKDAKK 430
+ KIL+YNRANRAVA+LCNHQR+ PK+ ++G K + R V ++ +K
Sbjct: 181 NIPAKILSYNRANRAVAILCNHQRAPPKTFQIALGTSKLNYLDPRITVAWCKKWGVPIEK 240
Query: 431 AGESKAMTDK 440
+K +K
Sbjct: 241 I-YNKTQREK 249
Score = 111 bits (280), Expect = 2e-28
Identities = 69/92 (75%), Positives = 81/92 (88%), Gaps = 1/92 (1%)
Query: 505 PSSKLKGEKDWQKYETARKLAKSINKIRENYQADWKSKEMRIRQRAVALYFIDKLALRAG 564
PSS++KGEKDWQKYETAR+L K ++KIR Y+ DWKSKEM++RQRAVALYFIDKLALRAG
Sbjct: 1 PSSRIKGEKDWQKYETARRLKKCVDKIRNQYREDWKSKEMKVRQRAVALYFIDKLALRAG 60
Query: 565 NEKDEDQ-ADTVGCCSLRVEHIQLHEEKDEKK 595
NEK+E + ADTVGCCSLRVEHI LH E D ++
Sbjct: 61 NEKEEGETADTVGCCSLRVEHINLHPELDGQE 92
Score = 42.5 bits (100), Expect = 8e-05
Identities = 18/30 (60%), Positives = 20/30 (66%)
Query: 589 EEKDEKKIYNKTQRAKFRWAIDMATADFVF 618
+KIYNKTQR KF WAIDMA D+ F
Sbjct: 234 WGVPIEKIYNKTQREKFAWAIDMADEDYEF 263
Score = 38.3 bits (89), Expect = 0.002
Identities = 23/67 (34%), Positives = 32/67 (47%), Gaps = 3/67 (4%)
Query: 421 AERALKDAKKAGESKAMTDKKKTALGRLKEQLLKLEVQETDKEENKTIALGTSKLNYLDP 480
++ LK+ E+ K + R + L + + IALGTSKLNYLDP
Sbjct: 168 LQQQLKELTAPDENIPA---KILSYNRANRAVAILCNHQRAPPKTFQIALGTSKLNYLDP 224
Query: 481 RISVTWL 487
RI+V W
Sbjct: 225 RITVAWC 231
>d1a41a_ d.163.1.2 (A:) Eukaryotic DNA topoisomerase I, catalytic
core {Vaccinia virus [TaxId: 10245]}
Length = 230
Score = 160 bits (406), Expect = 5e-46
Identities = 35/198 (17%), Positives = 73/198 (36%), Gaps = 9/198 (4%)
Query: 204 KYETARKLAKSINKIRENYQADWKSKEM-RIRQRAVALYFIDKLALRAGNEKDEDQADTV 262
+ ++ + +I + K Q AV + +R G K + +TV
Sbjct: 4 RDRIFVRVYNVMKRINCFINKNIKKSSTDSNYQLAVFMLMETMFFIRFGKMKYLKENETV 63
Query: 263 GCCSLRVEHIQLHEEKDGKPYVVCFDFLGKDSIRYYNEVPVEKRVFKNLQLFVENKKGSD 322
G +L+ +HI++ ++ F+GKD + + V R++K L ++ +
Sbjct: 64 GLLTLKNKHIEISPDEIV------IKFVGKDKVSHEFVVHKSNRLYKPLLKLTDDSSPEE 117
Query: 323 DLFDRLNTSVLNKHLSELMEGLTAKVFRTYNASITLQQQLNELMDPDFSEAEKILAYNRA 382
LF++L+ + + + + G+ K RTY + T +
Sbjct: 118 FLFNKLSERKVYECIKQ--FGIRIKDLRTYGVNYTFLYNFWTNVKSISPLPSPKKLIALT 175
Query: 383 NRAVAVLCNHQRSVPKSH 400
+ A + H S+ K
Sbjct: 176 IKQTAEVVGHTPSISKRA 193
Score = 77.2 bits (190), Expect = 1e-16
Identities = 14/78 (17%), Positives = 31/78 (39%), Gaps = 1/78 (1%)
Query: 517 KYETARKLAKSINKIRENYQADWKSKEM-RIRQRAVALYFIDKLALRAGNEKDEDQADTV 575
+ ++ + +I + K Q AV + +R G K + +TV
Sbjct: 4 RDRIFVRVYNVMKRINCFINKNIKKSSTDSNYQLAVFMLMETMFFIRFGKMKYLKENETV 63
Query: 576 GCCSLRVEHIQLHEEKDE 593
G +L+ +HI++ ++
Sbjct: 64 GLLTLKNKHIEISPDEIV 81
>d1k4ta1 a.2.8.1 (A:641-712) Eukaryotic DNA topoisomerase I,
dispensable insert domain {Human (Homo sapiens) [TaxId:
9606]}
Length = 72
Score = 68.3 bits (167), Expect = 4e-15
Identities = 36/72 (50%), Positives = 49/72 (68%), Gaps = 6/72 (8%)
Query: 401 DKSMGNLKEKISNKRKQVKDAERALKDAKKAGE------SKAMTDKKKTALGRLKEQLLK 454
+KSM NL+ KI K++Q+ DA R LK AK + +K + + KK A+ RL+EQL+K
Sbjct: 1 EKSMMNLQTKIDAKKEQLADARRDLKSAKADAKVMKDAKTKKVVESKKKAVQRLEEQLMK 60
Query: 455 LEVQETDKEENK 466
LEVQ TD+EENK
Sbjct: 61 LEVQATDREENK 72
>d1b0ba_ a.1.1.2 (A:) Hemoglobin I {Clam (Lucina pectinata)
[TaxId: 29163]}
Length = 142
Score = 27.4 bits (60), Expect = 2.7
Identities = 5/35 (14%), Positives = 9/35 (25%), Gaps = 1/35 (2%)
Query: 9 KLSQDAEEIAT-FYARMIEHEYTTKEAFNTNFMKD 42
K S F+ + + F+ F
Sbjct: 16 KASAAWGTAGPEFFMALFDAHDDVFAKFSGLFSGA 50
>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus
thermophilus [TaxId: 274]}
Length = 387
Score = 26.9 bits (59), Expect = 7.3
Identities = 13/61 (21%), Positives = 26/61 (42%), Gaps = 5/61 (8%)
Query: 406 NLKEKISNKRKQVKDAERALKDAKKAGESKAMTDKKKTALGRLKEQ-----LLKLEVQET 460
+ ++ R++++ AER + A K + + L E+ ++LEV E
Sbjct: 317 EAQHRLDEVRREIELAERQYDLNRAAELRYGELPKLEAEVEALSEKLRGARFVRLEVTEE 376
Query: 461 D 461
D
Sbjct: 377 D 377
>d1dkza1 a.8.4.1 (A:507-603) DnaK {Escherichia coli [TaxId: 562]}
Length = 97
Score = 25.5 bits (56), Expect = 7.9
Identities = 19/82 (23%), Positives = 36/82 (43%), Gaps = 2/82 (2%)
Query: 372 EAEKILAYNRANRAVAVLCNHQRSVPKSHDKSMGNLKEKIS-NKRKQVKDAERALKDAKK 430
+AE +R + N + S K + +K+ + + ++ A AL+ A K
Sbjct: 12 DAEANAEADRKFEELVQTRNQGDHLLHSTRKQVEEAGDKLPADDKTAIESALTALETALK 71
Query: 431 AGESKAMTDKKKTALGRLKEQL 452
GE KA + K L ++ ++L
Sbjct: 72 -GEDKAAIEAKMQELAQVSQKL 92
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.315 0.130 0.375
Gapped
Lambda K H
0.267 0.0614 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 2,291,396
Number of extensions: 109601
Number of successful extensions: 393
Number of sequences better than 10.0: 1
Number of HSP's gapped: 378
Number of HSP's successfully gapped: 44
Length of query: 618
Length of database: 2,407,596
Length adjustment: 91
Effective length of query: 527
Effective length of database: 1,158,166
Effective search space: 610353482
Effective search space used: 610353482
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.5 bits)
S2: 56 (25.6 bits)